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caper (version 0.4)
Comparative Analyses of Phylogenetics and Evolution in R
Description
Functions for performing phylogenetic comparative analyses.
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0.4
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Install
install.packages('caper')
Monthly Downloads
2,233
Version
0.4
License
GPL (>= 2)
Maintainer
David Orme
Last Published
June 3rd, 2011
Functions in caper (0.4)
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IsaacEtAl
Example dataset for the caper package
crunch
Comparative analysis using the crunch algorithm.
pgls
Phylogenetic generalized linear models
anova.pgls
Anova and AIC tables for 'pgls' models.
clade.matrix
Create a clade matrix from a phylogeny
fuscoData
Example dataset for Fusco imbalance calculations
pgls-methods
Generic model methods for 'pgls' models.
BritishBirds
Conservation status of British birds (Thomas 2008)
plot.pgls
Diagnostic plots for 'pgls' models.
phylo.d
Calculates the phylogenetic D statistic
clade.members
Identify tips descended from a node
caper-benchmarks
Datasets used for benchmarking caper
syrphidae
The syrphidae dataset of Katzourakis et al. 2001
caper-package
Comparative analysis of phylogenetics and evolution in R (caper)
pd.calc
Calculate and bootstrap phylogenetic diversity measurements.
summary.caic
Summarize a crunch, brunch or macrocaic analysis
fusco.test
Imbalance statistics using Fusco and Cronk's method.
perissodactyla
Example dataset for the CAIC package
comparative.data
Comparative dataset creation
anova.caic
Anova and model checking methods for independent contrast models.
brunch
Comparative analysis using the brunch algorithm.
macrocaic
Comparative analysis using independent contrasts on species richness data.
caic-class
The 'caic' S3 object class and methods
pgls.profile
Likelihood profiles and confidence intervals for 'pgls' models.
growTree
Tree simulation with traits.
VCV.array
Create a 2D or 3D variance-covariance matrix from a phylogeny
caic.diagnostics
Diagnostic tools for independent contrasts models
shorebird
Example dataset for the caper package